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mmu_circDop1a_848
Basic information of circular RNA
PanCircBase ID:
mmu_circDop1a_848
mm39_Chr. Position ID:
chr9|86408824|86424937|+
Gene name:
Dop1a
Transcript:
ENSMUST00000190957.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
24,25,26,27,28,29,30,31
Exon/intron offsets:
0,4943,6158,9136,9343,9671,15587,15963
Genomic length:
16113
Exon/intron sizes in nt:
13,55,61,05,67,14,58,00,00,000
Flanking exon/introns:
chr9:86406402-86408824|chr9:86424937-86425061
Splice length:
848
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCATCCCTGCAGCCAGTGAAGAACAGCTTTTACTAGTAGAACTGGTTCGCTCCATCAGTGTCATGAGGGCAGAAACTGTTATCCAGACTGTGAAAGAAGTTTTAAAGCAGCCTCCAGCCATAGCCAAGGACAAGAAACATCTTTCTCTGGAAGTCTGCATGCTTCAGTTTTTCTACGCTTATATACAAAGAATTCCAGTGCCCAATATAGTGGACAGTTGGACATCATTATTGGTCCTTCTAAAAGATTCTATACAGCTGAGTCTGCCAGCCCCAGGGCAGTTTCTTATACTTGGGGTTTTGAATGAGTTTATTATGAAAAACCCTAGTTTGGAAAATAAAAAGGACCAAAGAGACCTTCAGGATGTGACTCACAAAATAGTGGATGCTATTGGTGCAATTGCTGGTTCCTCTCTGGAACAGACAACATGGCTCCGACGGAATCTGGAAGTTAAGCCTTCTCCCAAAATAATGGTGGATGGAACCAATTTAGAGTCTGATGTTGAAGATATGTTATCCCCTGCAATGGAAACCTCAAACATAACTCCTTCTGTATATAGTGTCCATGCACTGACGTTGCTCTCAGAGGTATTGGCTCATCTTCTGGATATGGTTTTCTACAGCGATGAAAAAGAGCGTGTTATCCCTTTACTTGTAAACATTATGCATTATGTTGTACCCTACCTCCGAAATCACAGTGCACATAATGCCCCTAGTTACCGAGCCTGTGTCCAGCTGCTCAGTAGTCTTAGTGGGTATCAGTATACAAGGAGAGCCTGGAAAAAAGAAGCCTTTGACCTTTTTATGGATCCCAGCTTCTTTCAGATGGATGCTTCCTGTGTTAGTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAGGAGAGCCTGGAAAAA
56.95
CACTGATGGAGCGAACCAGT
60.04
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAGGAGAGCCTGGAAAAA
56.95
ACACTGATGGAGCGAACCAG
60.04
145
PCR template sequence:
TTAGTGGGTATCAGTATACAAGGAGAGCCTGGAAAAAAGAAGCCTTTGACCTTTTTATGGATCCCAGCTTCTTTCAGATGGATGCTTCCTGTGTTAGTCAGTCATCCCTGCAGCCAGTGAAGAACAGCTTTTACTAGTAGAACTGGTTCGCTCCATCAGTGTCATGAGGGCAGAAACTGTTATCCAGACTGTGAAAGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-let-7e-5p(1), mmu-miR-92a-3p(1), mmu-miR-152-3p(1), mmu-let-7d-5p(1), mmu-miR-363-3p(1), mmu-miR-98-5p(1), mmu-miR-335-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGTGTTAGTCAGTCATCCCTGCAG
siRNA sets
GATGACTGACTAACACAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDOP1A_848_ORF_1
1.0037
0.029929246
0.933265706
822
ORF sequence:
ATGAGGGCAGAAACTGTTATCCAGACTGTGAAAGAAGTTTTAAAGCAGCCTCCAGCCATAGCCAAGGACAAGAAACATCTTTCTCTGGAAGTCTGCATGCTTCAGTTTTTCTACGCTTATATACAAAGAATTCCAGTGCCCAATATAGTGGACAGTTGGACATCATTATTGGTCCTTCTAAAAGATTCTATACAGCTGAGTCTGCCAGCCCCAGGGCAGTTTCTTATACTTGGGGTTTTGAATGAGTTTATTATGAAAAACCCTAGTTTGGAAAATAAAAAGGACCAAAGAGACCTTCAGGATGTGACTCACAAAATAGTGGATGCTATTGGTGCAATTGCTGGTTCCTCTCTGGAACAGACAACATGGCTCCGACGGAATCTGGAAGTTAAGCCTTCTCCCAAAATAATGGTGGATGGAACCAATTTAGAGTCTGATGTTGAAGATATGTTATCCCCTGCAATGGAAACCTCAAACATAACTCCTTCTGTATATAGTGTCCATGCACTGACGTTGCTCTCAGAGGTATTGGCTCATCTTCTGGATATGGTTTTCTACAGCGATGAAAAAGAGCGTGTTATCCCTTTACTTGTAAACATTATGCATTATGTTGTACCCTACCTCCGAAATCACAGTGCACATAATGCCCCTAGTTACCGAGCCTGTGTCCAGCTGCTCAGTAGTCTTAGTGGGTATCAGTATACAAGGAGAGCCTGGAAAAAAGAAGCCTTTGACCTTTTTATGGATCCCAGCTTCTTTCAGATGGATGCTTCCTGTGTTAGTCAGTCATCCCTGCAGCCAGTGAAGAACAGCTTTTACTAG
Peptide sequence:
MRAETVIQTVKEVLKQPPAIAKDKKHLSLEVCMLQFFYAYIQRIPVPNIVDSWTSLLVLLKDSIQLSLPAPGQFLILGVLNEFIMKNPSLENKKDQRDLQDVTHKIVDAIGAIAGSSLEQTTWLRRNLEVKPSPKIMVDGTNLESDVEDMLSPAMETSNITPSVYSVHALTLLSEVLAHLLDMVFYSDEKERVIPLLVNIMHYVVPYLRNHSAHNAPSYRACVQLLSSLSGYQYTRRAWKKEAFDLFMDPSFFQMDASCVSQSSLQPVKNSFY
IRESfinder result
IRESfinder score
0.746932674
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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